Package evaluation of PyGDatasets on Julia 1.10.8 (4c16ff44be*) started at 2025-02-25T15:55:44.470 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 5.13s ################################################################################ # Installation # Installing PyGDatasets... Resolving package versions... Updating `~/.julia/environments/v1.10/Project.toml` [44f67abd] + PyGDatasets v0.1.2 Updating `~/.julia/environments/v1.10/Manifest.toml` [7d9f7c33] + Accessors v0.1.41 [79e6a3ab] + Adapt v4.2.0 [66dad0bd] + AliasTables v1.1.3 [dce04be8] + ArgCheck v2.4.0 [ec485272] + ArnoldiMethod v0.4.0 [a9b6321e] + Atomix v1.1.0 [a963bdd2] + AtomsBase v0.5.1 [ab4f0b2a] + BFloat16s v0.5.0 [198e06fe] + BangBang v0.4.3 [9718e550] + Baselet v0.1.1 [d1d4a3ce] + BitFlags v0.1.9 [e1450e63] + BufferedStreams v1.2.2 [336ed68f] + CSV v0.10.15 [d360d2e6] + ChainRulesCore v1.25.1 [46823bd8] + Chemfiles v0.10.42 [944b1d66] + CodecZlib v0.7.8 [35d6a980] + ColorSchemes v3.29.0 [3da002f7] + ColorTypes v0.12.0 [c3611d14] + ColorVectorSpace v0.11.0 [5ae59095] + Colors v0.13.0 [34da2185] + Compat v4.16.0 [a33af91c] + CompositionsBase v0.1.2 [f0e56b4a] + ConcurrentUtilities v2.5.0 [992eb4ea] + CondaPkg v0.2.25 [187b0558] + ConstructionBase v1.5.8 [6add18c4] + ContextVariablesX v0.1.3 [a8cc5b0e] + Crayons v4.1.1 [53c2dc0f] + DLPack v0.3.1 [9a962f9c] + DataAPI v1.16.0 [124859b0] + DataDeps v0.7.13 [a93c6f00] + DataFrames v1.7.0 [864edb3b] + DataStructures v0.18.20 [e2d170a0] + DataValueInterfaces v1.0.0 [244e2a9f] + DefineSingletons v0.1.2 [8bb1440f] + DelimitedFiles v1.9.1 [b4f34e82] + Distances v0.10.12 [ffbed154] + DocStringExtensions v0.9.3 [460bff9d] + ExceptionUnwrapping v0.1.11 [cc61a311] + FLoops v0.2.2 [b9860ae5] + FLoopsBase v0.1.1 [5789e2e9] + FileIO v1.16.6 [48062228] + FilePathsBase v0.9.23 [53c48c17] + FixedPointNumbers v0.8.5 [d9f16b24] + Functors v0.5.2 [aed8fd31] + GNNGraphs v1.4.2 [46192b85] + GPUArraysCore v0.2.0 [92fee26a] + GZip v0.6.2 [c27321d9] + Glob v1.3.1 [86223c79] + Graphs v1.12.0 [f67ccb44] + HDF5 v0.17.2 [cd3eb016] + HTTP v1.10.15 [c817782e] + ImageBase v0.1.7 [a09fc81d] + ImageCore v0.10.5 [4e3cecfd] + ImageShow v0.3.8 [d25df0c9] + Inflate v0.1.5 [22cec73e] + InitialValues v0.3.1 [842dd82b] + InlineStrings v1.4.3 [7d512f48] + InternedStrings v0.7.0 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [033835bb] + JLD2 v0.5.11 [692b3bcd] + JLLWrappers v1.7.0 [0f8b85d8] + JSON3 v1.14.1 [b14d175d] + JuliaVariables v0.2.4 [63c18a36] + KernelAbstractions v0.9.34 [0b1a1467] + KrylovKit v0.9.5 [b964fa9f] + LaTeXStrings v1.4.0 [8cdb02fc] + LazyModules v0.3.1 [2ab3a3ac] + LogExpFunctions v0.3.29 [e6f89c97] + LoggingExtras v1.1.0 [23992714] + MAT v0.10.7 [c2834f40] + MLCore v1.0.0 [7e8f7934] + MLDataDevices v1.6.11 [eb30cadb] + MLDatasets v0.7.18 [d8e11817] + MLStyle v0.4.17 [f1d291b0] + MLUtils v0.4.7 [3da0fdf6] + MPIPreferences v0.1.11 [1914dd2f] + MacroTools v0.5.15 [dbb5928d] + MappedArrays v0.4.2 [739be429] + MbedTLS v1.1.9 [128add7d] + MicroCollections v0.2.0 [0b3b1443] + MicroMamba v0.1.14 [e1d29d7a] + Missings v1.2.0 [e94cdb99] + MosaicViews v0.3.4 [872c559c] + NNlib v0.9.27 [15e1cf62] + NPZ v0.4.3 [71a1bf82] + NameResolution v0.1.5 [b8a86587] + NearestNeighbors v0.4.21 [6fe1bfb0] + OffsetArrays v1.15.0 [4d8831e6] + OpenSSL v1.4.3 [bac558e1] + OrderedCollections v1.8.0 [65ce6f38] + PackageExtensionCompat v1.0.2 [5432bcbf] + PaddedViews v0.5.12 [69de0a69] + Parsers v2.8.1 [7b2266bf] + PeriodicTable v1.2.1 [fbb45041] + Pickle v0.3.5 [fa939f87] + Pidfile v1.3.0 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [8162dcfd] + PrettyPrint v0.2.0 [08abe8d2] + PrettyTables v2.4.0 [43287f4e] + PtrArrays v1.3.0 [44f67abd] + PyGDatasets v0.1.2 [6099a3de] + PythonCall v0.9.24 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.0 [6c6a2e73] + Scratch v1.2.1 [91c51154] + SentinelArrays v1.4.8 [efcf1570] + Setfield v1.1.1 [605ecd9f] + ShowCases v0.1.0 [777ac1f9] + SimpleBufferStream v1.2.0 [699a6c99] + SimpleTraits v0.9.4 [a2af1166] + SortingAlgorithms v1.2.1 [171d559e] + SplittablesBase v0.1.15 [cae243ae] + StackViews v0.1.1 [90137ffa] + StaticArrays v1.9.12 [1e83bf80] + StaticArraysCore v1.4.3 [82ae8749] + StatsAPI v1.7.0 [2913bbd2] + StatsBase v0.34.4 ⌅ [4db3bf67] + StridedViews v0.2.2 [69024149] + StringEncodings v0.3.7 [892a3eda] + StringManipulation v0.4.1 [856f2bd8] + StructTypes v1.11.0 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.0 [62fd8b95] + TensorCore v0.1.1 [3bb67fe8] + TranscodingStreams v0.11.3 [28d57a85] + Transducers v0.4.84 [5c2747f8] + URIs v1.5.1 [1986cc42] + Unitful v1.22.0 [a7773ee8] + UnitfulAtomic v1.0.0 [013be700] + UnsafeAtomics v0.3.0 [e17b2a0c] + UnsafePointers v1.0.0 [409d34a3] + VectorInterface v0.5.0 [ea10d353] + WeakRefStrings v1.4.2 [76eceee3] + WorkerUtilities v1.6.1 [a5390f91] + ZipFile v0.10.1 [78a364fa] + Chemfiles_jll v0.10.4+0 [0234f1f7] + HDF5_jll v1.14.5+0 [e33a78d0] + Hwloc_jll v2.12.0+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [7cb0a576] + MPICH_jll v4.3.0+0 [f1f71cc9] + MPItrampoline_jll v5.5.2+0 [9237b28f] + MicrosoftMPI_jll v10.1.4+3 [fe0851c0] + OpenMPI_jll v5.0.7+0 [458c3c95] + OpenSSL_jll v3.0.16+0 [477f73a3] + libaec_jll v1.1.3+0 [f8abcde7] + micromamba_jll v1.5.8+0 [4d7b5844] + pixi_jll v0.41.3+0 [0dad84c5] + ArgTools v1.1.1 [56f22d72] + Artifacts [2a0f44e3] + Base64 [ade2ca70] + Dates [8ba89e20] + Distributed [f43a241f] + Downloads v1.6.0 [7b1f6079] + FileWatching [9fa8497b] + Future [b77e0a4c] + InteractiveUtils [4af54fe1] + LazyArtifacts [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 [8f399da3] + Libdl [37e2e46d] + LinearAlgebra [56ddb016] + Logging [d6f4376e] + Markdown [a63ad114] + Mmap [ca575930] + NetworkOptions v1.2.0 [44cfe95a] + Pkg v1.10.0 [de0858da] + Printf [3fa0cd96] + REPL [9a3f8284] + Random [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization [1a1011a3] + SharedArrays [6462fe0b] + Sockets [2f01184e] + SparseArrays v1.10.0 [10745b16] + Statistics v1.10.0 [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test [cf7118a7] + UUIDs [4ec0a83e] + Unicode [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] + LibCURL_jll v8.4.0+0 [e37daf67] + LibGit2_jll v1.6.4+0 [29816b5a] + LibSSH2_jll v1.11.0+1 [c8ffd9c3] + MbedTLS_jll v2.28.2+1 [14a3606d] + MozillaCACerts_jll v2023.1.10 [4536629a] + OpenBLAS_jll v0.3.23+4 [bea87d4a] + SuiteSparse_jll v7.2.1+1 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 [8e850ede] + nghttp2_jll v1.52.0+1 [3f19e933] + p7zip_jll v17.4.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 13.38s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... ERROR: LoadError: The following 1 direct dependency failed to precompile: PyGDatasets Failed to precompile PyGDatasets [44f67abd-f36e-4be4-bfe5-65f468a62b3d] to "/home/pkgeval/.julia/compiled/v1.10/PyGDatasets/jl_nR7tPn". CondaPkg Found dependencies: /home/pkgeval/.julia/packages/PythonCall/WMWY0/CondaPkg.toml CondaPkg Found dependencies: /home/pkgeval/.julia/packages/PyGDatasets/mdOk1/CondaPkg.toml CondaPkg Resolving changes + libstdcxx-ng + numpy + openssl + pyg + python + pytorch + rdkit CondaPkg Initialising pixi │ /home/pkgeval/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ init │ --format pixi └ /tmp/jl_LFtd2L/.CondaPkg ✔ Created /tmp/jl_LFtd2L/.CondaPkg/pixi.toml CondaPkg Wrote /tmp/jl_LFtd2L/.CondaPkg/pixi.toml │ [dependencies] │ openssl = ">=3, <3.1" │ rdkit = "*" │ libstdcxx-ng = ">=3.4,<13.0" │ pytorch = "*" │ pyg = ">=2.0, <3" │ numpy = "*" │ │ [dependencies.python] │ channel = "conda-forge" │ build = "*cpython*" │ version = ">=3.8,<4, <=3.11" │ │ [project] │ name = ".CondaPkg" │ platforms = ["linux-64"] │ channels = ["conda-forge", "pyg", "pytorch"] │ channel-priority = "disabled" └ description = "automatically generated by CondaPkg.jl" CondaPkg Installing packages │ /home/pkgeval/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ install └ --manifest-path /tmp/jl_LFtd2L/.CondaPkg/pixi.toml ✔ The default environment has been installed. [69] signal (11.1): Segmentation fault in expression starting at /home/pkgeval/.julia/packages/PyGDatasets/mdOk1/src/PyGDatasets.jl:3 pymalloc_alloc at /usr/local/src/conda/python-3.11.0/Objects/obmalloc.c:1979 [inlined] _PyObject_Malloc at /usr/local/src/conda/python-3.11.0/Objects/obmalloc.c:1998 [inlined] PyObject_Malloc at /usr/local/src/conda/python-3.11.0/Objects/obmalloc.c:712 [inlined] PyUnicode_New at /usr/local/src/conda/python-3.11.0/Objects/unicodeobject.c:1425 [inlined] unicode_decode_utf8 at /usr/local/src/conda/python-3.11.0/Objects/unicodeobject.c:5117 PyImport_ImportModuleLevel at /usr/local/src/conda/python-3.11.0/Python/import.c:1930 PyImport_Import at /usr/local/src/conda/python-3.11.0/Python/import.c:1998 PyImport_Import at /home/pkgeval/.julia/packages/PythonCall/WMWY0/src/C/pointers.jl:303 unknown function (ip: 0x7b154df413dc) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_invoke at /source/src/gf.c:2902 unknown function (ip: 0x7b154df403e9) unknown function (ip: 0x7b154df4019e) macro expansion at /home/pkgeval/.julia/packages/PythonCall/WMWY0/src/Core/Py.jl:132 [inlined] pyimport at /home/pkgeval/.julia/packages/PythonCall/WMWY0/src/Core/builtins.jl:1561 unknown function (ip: 0x7b154df400c5) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_invoke at /source/src/gf.c:2902 unknown function (ip: 0x7b154df3ffd9) unknown function (ip: 0x7b154df3fe2a) pyimport at /home/pkgeval/.julia/packages/PythonCall/WMWY0/src/Core/builtins.jl:1562 [inlined] init_consts at /home/pkgeval/.julia/packages/PythonCall/WMWY0/src/Core/consts.jl:205 unknown function (ip: 0x7b154df3fde2) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_invoke at /source/src/gf.c:2902 unknown function (ip: 0x7b154df3d0b9) unknown function (ip: 0x7b154df3cf31) __init__ at /home/pkgeval/.julia/packages/PythonCall/WMWY0/src/Core/Core.jl:42 unknown function (ip: 0x7b154df3cec6) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] jl_module_run_initializer at /source/src/toplevel.c:76 run_module_init at ./loading.jl:1193 register_restored_modules at ./loading.jl:1181 _include_from_serialized at ./loading.jl:1126 _require_search_from_serialized at ./loading.jl:1651 _require at ./loading.jl:2008 __require_prelocked at ./loading.jl:1882 jfptr___require_prelocked_80946.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] jl_f__call_in_world at /source/src/builtins.c:831 #invoke_in_world#3 at ./essentials.jl:926 [inlined] invoke_in_world at ./essentials.jl:923 [inlined] _require_prelocked at ./loading.jl:1873 macro expansion at ./loading.jl:1860 [inlined] macro expansion at ./lock.jl:267 [inlined] __require at ./loading.jl:1823 jfptr___require_80909.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] jl_f__call_in_world at /source/src/builtins.c:831 #invoke_in_world#3 at ./essentials.jl:926 [inlined] invoke_in_world at ./essentials.jl:923 [inlined] require at ./loading.jl:1816 jfptr_require_80906.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] call_require at /source/src/toplevel.c:481 [inlined] eval_import_path at /source/src/toplevel.c:518 jl_toplevel_eval_flex at /source/src/toplevel.c:752 jl_eval_module_expr at /source/src/toplevel.c:215 [inlined] jl_toplevel_eval_flex at /source/src/toplevel.c:736 jl_toplevel_eval_flex at /source/src/toplevel.c:877 ijl_toplevel_eval_in at /source/src/toplevel.c:985 eval at ./boot.jl:385 [inlined] include_string at ./loading.jl:2146 _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 _include at ./loading.jl:2206 include at ./Base.jl:495 [inlined] include_package_for_output at ./loading.jl:2292 jfptr_include_package_for_output_81184.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:635 jl_interpret_toplevel_thunk at /source/src/interpreter.c:775 jl_toplevel_eval_flex at /source/src/toplevel.c:934 jl_toplevel_eval_flex at /source/src/toplevel.c:877 ijl_toplevel_eval_in at /source/src/toplevel.c:985 eval at ./boot.jl:385 [inlined] include_string at ./loading.jl:2146 include_string at ./loading.jl:2156 [inlined] exec_options at ./client.jl:321 _start at ./client.jl:557 jfptr__start_82892.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] true_main at /source/src/jlapi.c:582 jl_repl_entrypoint at /source/src/jlapi.c:731 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x7b154e8e4249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) Allocations: 4156270 (Pool: 4152756; Big: 3514); GC: in expression starting at /PkgEval.jl/scripts/precompile.jl:37 Precompilation failed after 129.82s ################################################################################ # Testing # Testing PyGDatasets Status `/tmp/jl_otOiXg/Project.toml` [53c2dc0f] DLPack v0.3.1 [aed8fd31] GNNGraphs v1.4.2 [44f67abd] PyGDatasets v0.1.2 [6099a3de] PythonCall v0.9.24 [189a3867] Reexport v1.2.2 [f8b46487] TestItemRunner v1.1.0 [1c621080] TestItems v1.0.0 [8dfed614] Test Status `/tmp/jl_otOiXg/Manifest.toml` [7d9f7c33] Accessors v0.1.41 [79e6a3ab] Adapt v4.2.0 [66dad0bd] AliasTables v1.1.3 [dce04be8] ArgCheck v2.4.0 [ec485272] ArnoldiMethod v0.4.0 [a9b6321e] Atomix v1.1.0 [a963bdd2] AtomsBase v0.5.1 [ab4f0b2a] BFloat16s v0.5.0 [198e06fe] BangBang v0.4.3 [9718e550] Baselet v0.1.1 [d1d4a3ce] BitFlags v0.1.9 [e1450e63] BufferedStreams v1.2.2 [336ed68f] CSV v0.10.15 [d360d2e6] ChainRulesCore v1.25.1 [46823bd8] Chemfiles v0.10.42 [944b1d66] CodecZlib v0.7.8 [35d6a980] ColorSchemes v3.29.0 [3da002f7] ColorTypes v0.12.0 [c3611d14] ColorVectorSpace v0.11.0 [5ae59095] Colors v0.13.0 [34da2185] Compat v4.16.0 [a33af91c] CompositionsBase v0.1.2 [f0e56b4a] ConcurrentUtilities v2.5.0 [992eb4ea] CondaPkg v0.2.25 [187b0558] ConstructionBase v1.5.8 [6add18c4] ContextVariablesX v0.1.3 [a8cc5b0e] Crayons v4.1.1 [53c2dc0f] DLPack v0.3.1 [9a962f9c] DataAPI v1.16.0 [124859b0] DataDeps v0.7.13 [a93c6f00] DataFrames v1.7.0 [864edb3b] DataStructures v0.18.20 [e2d170a0] DataValueInterfaces v1.0.0 [244e2a9f] DefineSingletons v0.1.2 [8bb1440f] DelimitedFiles v1.9.1 [b4f34e82] Distances v0.10.12 [ffbed154] DocStringExtensions v0.9.3 [460bff9d] ExceptionUnwrapping v0.1.11 [cc61a311] FLoops v0.2.2 [b9860ae5] FLoopsBase v0.1.1 [5789e2e9] FileIO v1.16.6 [48062228] FilePathsBase v0.9.23 [53c48c17] FixedPointNumbers v0.8.5 [d9f16b24] Functors v0.5.2 [aed8fd31] GNNGraphs v1.4.2 [46192b85] GPUArraysCore v0.2.0 [92fee26a] GZip v0.6.2 [c27321d9] Glob v1.3.1 [86223c79] Graphs v1.12.0 [f67ccb44] HDF5 v0.17.2 [cd3eb016] HTTP v1.10.15 [c817782e] ImageBase v0.1.7 [a09fc81d] ImageCore v0.10.5 [4e3cecfd] ImageShow v0.3.8 [d25df0c9] Inflate v0.1.5 [22cec73e] InitialValues v0.3.1 [842dd82b] InlineStrings v1.4.3 [7d512f48] InternedStrings v0.7.0 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [82899510] IteratorInterfaceExtensions v1.0.0 [033835bb] JLD2 v0.5.11 [692b3bcd] JLLWrappers v1.7.0 [0f8b85d8] JSON3 v1.14.1 [b14d175d] JuliaVariables v0.2.4 [63c18a36] KernelAbstractions v0.9.34 [0b1a1467] KrylovKit v0.9.5 [b964fa9f] LaTeXStrings v1.4.0 [8cdb02fc] LazyModules v0.3.1 [2ab3a3ac] LogExpFunctions v0.3.29 [e6f89c97] LoggingExtras v1.1.0 [23992714] MAT v0.10.7 [c2834f40] MLCore v1.0.0 [7e8f7934] MLDataDevices v1.6.11 [eb30cadb] MLDatasets v0.7.18 [d8e11817] MLStyle v0.4.17 [f1d291b0] MLUtils v0.4.7 [3da0fdf6] MPIPreferences v0.1.11 [1914dd2f] MacroTools v0.5.15 [dbb5928d] MappedArrays v0.4.2 [739be429] MbedTLS v1.1.9 [128add7d] MicroCollections v0.2.0 [0b3b1443] MicroMamba v0.1.14 [e1d29d7a] Missings v1.2.0 [e94cdb99] MosaicViews v0.3.4 [872c559c] NNlib v0.9.27 [15e1cf62] NPZ v0.4.3 [71a1bf82] NameResolution v0.1.5 [b8a86587] NearestNeighbors v0.4.21 [6fe1bfb0] OffsetArrays v1.15.0 [4d8831e6] OpenSSL v1.4.3 [bac558e1] OrderedCollections v1.8.0 [65ce6f38] PackageExtensionCompat v1.0.2 [5432bcbf] PaddedViews v0.5.12 [69de0a69] Parsers v2.8.1 [7b2266bf] PeriodicTable v1.2.1 [fbb45041] Pickle v0.3.5 [fa939f87] Pidfile v1.3.0 [2dfb63ee] PooledArrays v1.4.3 [aea7be01] PrecompileTools v1.2.1 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[d6f4376e] Markdown [a63ad114] Mmap [ca575930] NetworkOptions v1.2.0 [44cfe95a] Pkg v1.10.0 [de0858da] Printf [3fa0cd96] REPL [9a3f8284] Random [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization [1a1011a3] SharedArrays [6462fe0b] Sockets [2f01184e] SparseArrays v1.10.0 [10745b16] Statistics v1.10.0 [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test [cf7118a7] UUIDs [4ec0a83e] Unicode [e66e0078] CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] LibCURL_jll v8.4.0+0 [e37daf67] LibGit2_jll v1.6.4+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.2+1 [14a3606d] MozillaCACerts_jll v2023.1.10 [4536629a] OpenBLAS_jll v0.3.23+4 [bea87d4a] SuiteSparse_jll v7.2.1+1 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.52.0+1 [3f19e933] p7zip_jll v17.4.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... CondaPkg Found dependencies: /home/pkgeval/.julia/packages/PythonCall/WMWY0/CondaPkg.toml CondaPkg Found dependencies: /home/pkgeval/.julia/packages/PyGDatasets/mdOk1/CondaPkg.toml CondaPkg Resolving changes + libstdcxx-ng + numpy + openssl + pyg + python + pytorch + rdkit CondaPkg Initialising pixi │ /home/pkgeval/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ init │ --format pixi └ /tmp/jl_otOiXg/.CondaPkg ✔ Created /tmp/jl_otOiXg/.CondaPkg/pixi.toml CondaPkg Wrote /tmp/jl_otOiXg/.CondaPkg/pixi.toml │ [dependencies] │ openssl = ">=3, <3.1" │ rdkit = "*" │ libstdcxx-ng = ">=3.4,<13.0" │ pytorch = "*" │ pyg = ">=2.0, <3" │ numpy = "*" │ │ [dependencies.python] │ channel = "conda-forge" │ build = "*cpython*" │ version = ">=3.8,<4, <=3.11" │ │ [project] │ name = ".CondaPkg" │ platforms = ["linux-64"] │ channels = ["conda-forge", "pyg", "pytorch"] │ channel-priority = "disabled" └ description = "automatically generated by CondaPkg.jl" CondaPkg Installing packages │ /home/pkgeval/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ install └ --manifest-path /tmp/jl_otOiXg/.CondaPkg/pixi.toml ✔ The default environment has been installed. ERROR: LoadError: InitError: Python: OSError: libmkl_intel_lp64.so.2: cannot open shared object file: No such file or directory Python stacktrace: [1] __init__ @ ctypes /tmp/jl_otOiXg/.CondaPkg/.pixi/envs/default/lib/python3.11/ctypes/__init__.py:376 [2] _load_global_deps @ /tmp/jl_otOiXg/.CondaPkg/.pixi/envs/default/lib/python3.11/site-packages/torch/__init__.py:226 [3] _load_global_deps @ /tmp/jl_otOiXg/.CondaPkg/.pixi/envs/default/lib/python3.11/site-packages/torch/__init__.py:245 [4] @ /tmp/jl_otOiXg/.CondaPkg/.pixi/envs/default/lib/python3.11/site-packages/torch/__init__.py:289 [5] @ /tmp/jl_otOiXg/.CondaPkg/.pixi/envs/default/lib/python3.11/site-packages/torch_geometric/__init__.py:3 Stacktrace: [1] pythrow() @ PythonCall.Core ~/.julia/packages/PythonCall/WMWY0/src/Core/err.jl:92 [2] errcheck(val::Ptr{PythonCall.C.PyObject}) @ PythonCall.Core ~/.julia/packages/PythonCall/WMWY0/src/Core/err.jl:10 [3] pyimport(m::String) @ PythonCall.Core ~/.julia/packages/PythonCall/WMWY0/src/Core/builtins.jl:1561 [4] __init__() @ PyGDatasets ~/.julia/packages/PyGDatasets/mdOk1/src/PyGDatasets.jl:27 [5] run_module_init(mod::Module, i::Int64) @ Base ./loading.jl:1193 [6] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String) @ Base ./loading.jl:1181 [7] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::Nothing, depmods::Vector{Any}) @ Base ./loading.jl:1126 [8] _tryrequire_from_serialized(pkg::Base.PkgId, path::String, ocachepath::Nothing) @ Base ./loading.jl:1601 [9] _require(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2060 [10] __require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:1882 [11] #invoke_in_world#3 @ ./essentials.jl:926 [inlined] [12] invoke_in_world @ ./essentials.jl:923 [inlined] [13] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:1873 [14] macro expansion @ ./loading.jl:1860 [inlined] [15] macro expansion @ ./lock.jl:267 [inlined] [16] __require(into::Module, mod::Symbol) @ Base ./loading.jl:1823 [17] #invoke_in_world#3 @ ./essentials.jl:926 [inlined] [18] invoke_in_world @ ./essentials.jl:923 [inlined] [19] require(into::Module, mod::Symbol) @ Base ./loading.jl:1816 [20] eval @ ./boot.jl:385 [inlined] [21] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2146 [22] include_string(m::Module, txt::String, fname::String) @ Base ./loading.jl:2156 [23] #invokelatest#2 @ ./essentials.jl:892 [inlined] [24] invokelatest @ ./essentials.jl:889 [inlined] [25] #2 @ ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:77 [inlined] [26] withpath(f::TestItemRunner.var"#2#4"{String, String, Module}, path::String) @ TestItemRunner ~/.julia/packages/TestItemRunner/Q6zqe/src/vendored_code.jl:7 [27] #1 @ ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:76 [inlined] [28] cd(f::TestItemRunner.var"#1#3"{String, String, Module}, dir::String) @ Base.Filesystem ./file.jl:112 [29] ensure_evaled(test_setup_module_set::TestItemRunner.TestSetupModuleSet, filename::String, code::String, name::Symbol, line::Int64, column::Int64, working_dir::String) @ TestItemRunner ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:75 [30] run_tests(path::String; filter::Nothing, verbose::Bool) @ TestItemRunner ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:209 [31] run_tests(path::String) @ TestItemRunner ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:133 [32] top-level scope @ ~/.julia/packages/PyGDatasets/mdOk1/test/runtests.jl:3 [33] include(fname::String) @ Base.MainInclude ./client.jl:494 [34] top-level scope @ none:6 during initialization of module PyGDatasets in expression starting at /home/pkgeval/.julia/packages/PyGDatasets/mdOk1/test/test_module.jl:5 in expression starting at /home/pkgeval/.julia/packages/PyGDatasets/mdOk1/test/runtests.jl:3 Testing failed after 172.33s ERROR: LoadError: Package PyGDatasets errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Types.jl:70 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:2034 [3] test @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1915 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::Base.PipeEndpoint}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:444 [5] test(pkgs::Vector{Pkg.Types.PackageSpec}; io::Base.PipeEndpoint, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:159 [6] test @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:147 [inlined] [7] #test#74 @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:146 [inlined] [8] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval crashed after 374.08s: a segmentation fault happened